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NC_055735.1__YP_010093400.1__KNT79_gp50__00050

Bact-Vir

NC_055735.1__YP_010093400.1__KNT79_gp50__00050

Identity

Accession:
NC_055735 ↗
Kingdom:
phage

Quality

85.8 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Schitoviridae› Pariacacavirus› Vibrio_phage_1.238.A._10N.261.52.F10

TaxID: 1881231

Cluster

View cluster (10 members)

3D Structure

Download PDB Download Scores JSON

Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 high residues 13-62
PDB
Domain cluster: representative
CATH (26)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3qktD01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.67 55.0 3.45e-01 100.0% 17.9%
3ihpA01 3.30.40.10 Alpha Beta › 2-Layer Sandwich › Herpes Virus-1 › Zinc/RING finger domain, C3HC4 (zinc finger) 0.67 56.0 4.39e-01 100.0% 62.1%
1f2uB00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.65 53.0 3.96e-01 100.0% 39.3%
2gumB03 2.30.29.100 Mainly Beta › Roll › PH-domain like › 0.63 49.0 3.75e-01 88.0% 88.4%
6l4lA02 3.10.310.10 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › Diaminopimelate Epimerase; Chain A, domain 1 0.63 53.0 3.96e-01 100.0% 75.7%
1yw5A01 2.20.70.10 Mainly Beta › Single Sheet › Ubiquitin Ligase Nedd4; Chain: W; › 0.62 48.0 4.64e-01 94.0% 82.5%
3fvcA03 2.30.29.100 Mainly Beta › Roll › PH-domain like › 0.61 47.0 3.75e-01 88.0% 92.7%
5vmzA01 3.30.160.60 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Classic Zinc Finger 0.60 38.0 4.07e-01 70.0% 79.5%
3ottA01 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.58 51.0 3.12e-01 100.0% 19.1%
3c7xA00 2.110.10.10 Mainly Beta › 4 Propeller › Hemopexin › Hemopexin-like domain 0.58 43.0 2.93e-01 100.0% 20.9%
3bwsA02 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.57 49.0 3.01e-01 100.0% 21.7%
1npeA00 2.120.10.30 Mainly Beta › 6 Propeller › Neuraminidase › TolB, C-terminal domain 0.57 48.0 3.09e-01 100.0% 24.3%
8cukB01 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.57 48.0 2.95e-01 100.0% 19.6%
2cn2A02 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.56 48.0 2.89e-01 100.0% 19.2%
2dg1C00 2.120.10.30 Mainly Beta › 6 Propeller › Neuraminidase › TolB, C-terminal domain 0.56 48.0 2.94e-01 100.0% 20.3%
3klkA01 2.10.270.10 Mainly Beta › Ribbon › left handed beta-beta-3-solenoid › Cholin Binding 0.56 42.0 3.03e-01 86.0% 69.6%
4ci8A02 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.55 46.0 2.86e-01 100.0% 30.0%
7cr6D01 3.100.10.20 Alpha Beta › Ribosomal Protein L15; Chain: K; domain 2 › Ribosomal Protein L15; Chain: K; domain 2 › CRISPR-associated endonuclease Cas1, N-terminal domain 0.54 44.0 3.81e-01 92.0% 65.9%
1oe4A00 3.40.470.10 Alpha Beta › 3-Layer(aba) Sandwich › Uracil-DNA Glycosylase, subunit E › Uracil-DNA glycosylase-like domain 0.54 43.0 2.90e-01 100.0% 63.3%
2cmzA03 2.30.29.130 Mainly Beta › Roll › PH-domain like › 0.53 42.0 3.62e-01 100.0% 84.9%
4blpB00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.52 44.0 2.82e-01 98.0% 64.8%
1k32A02 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.52 41.0 2.59e-01 100.0% 23.4%
1k92A02 3.90.1260.10 Alpha Beta › Alpha-Beta Complex › Argininosuccinate synthetase, chain A, domain 2 › Argininosuccinate synthetase, chain A, domain 2 0.52 39.0 2.74e-01 94.0% 33.5%
4j4hA01 3.40.50.12150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.51 36.0 2.75e-01 76.0% 63.7%
5lq4A01 3.40.109.10 Alpha Beta › 3-Layer(aba) Sandwich › NADH Oxidase › NADH Oxidase 0.51 41.0 2.81e-01 100.0% 54.4%
2ljwA00 3.30.428.40 Alpha Beta › 2-Layer Sandwich › HIT family, subunit A › Protein of unknown function DUF3067 0.50 36.0 2.88e-01 78.0% 60.6%
ECOD (62)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3755591 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.69 47.0 4.42e-01 74.0% 66.2%
5014331 2004.1.1.293 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_15 0.67 55.0 3.10e-01 100.0% 7.8%
4480602 2004.1.1.199 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_23,SbcC_Walker_B 0.66 52.0 3.09e-01 100.0% 12.1%
4776306 2004.1.1.87 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › SMC_N 0.66 53.0 3.79e-01 100.0% 31.8%
5050199 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.65 52.0 3.86e-01 100.0% 39.9%
3924082 386.1.1.64 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › zf-C2H2_12 0.65 43.0 3.84e-01 70.0% 50.7%
4026722 2.1.1.76 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › REPA_OB_2 0.64 54.0 4.00e-01 100.0% 87.9%
5033222 375.1.1.26 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › Rpr2 0.63 39.0 3.06e-01 88.0% 28.6%
4953503 2008.1.1.107 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › NERD 0.63 44.0 2.98e-01 74.0% 41.5%
3999896 4.8.1.0 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like 0.62 51.0 5.02e-01 100.0% 87.3%
4463837 375.1.1.26 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › Rpr2 0.62 38.0 3.01e-01 88.0% 28.6%
5038830 375.1.1.26 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › Rpr2 0.62 38.0 3.05e-01 88.0% 30.0%
4997764 375.8.1.0 ↗ few secondary structure elements › Rubredoxin-like › Zinc-binding domain of translation initiation factor 2 beta › Zinc-binding domain of translation initiation factor 2 beta 0.62 37.0 4.24e-01 88.0% 96.7%
3619889 331.23.1.7 ↗ a+b two layers › TBP-like › Integrator IntS9/IntS11 C-terminal domain › Integrator IntS9/IntS11 C-terminal domain › CPSF73-100_C 0.61 48.0 4.42e-01 92.0% 82.9%
3493489 64.1.1.0 ↗ beta meanders › WW domain-like › WW domain › WW domain 0.60 43.0 4.37e-01 88.0% 78.0%
3620992 386.1.1.4 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › zf-BED 0.60 40.0 4.05e-01 70.0% 80.0%
3787034 5.1.4.250 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › DUF2415 0.60 53.0 3.06e-01 100.0% 29.3%
3185844 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.59 40.0 3.65e-01 70.0% 80.0%
4283078 2006.1.3.2 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › Toprim domain › Toprim 0.59 40.0 2.95e-01 74.0% 78.1%
3646521 4.2.1.4 ↗ beta barrels › SH3 › SAND › SAND › TDBD 0.59 47.0 4.23e-01 94.0% 82.7%
3538753 386.1.1.4 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › zf-BED 0.58 40.0 3.75e-01 74.0% 60.0%
3577308 330.3.1.0 ↗ a+b two layers › dsRBD-like › Peptidyl-tRNA hydrolase domain-like › Peptidyl-tRNA hydrolase domain-like 0.58 39.0 3.83e-01 70.0% 83.6%
3524423 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.58 39.0 3.81e-01 70.0% 61.8%
3517945 5.1.3.128 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › TEN_NHL 0.58 50.0 3.00e-01 100.0% 36.3%
3666644 64.1.1.0 ↗ beta meanders › WW domain-like › WW domain › WW domain 0.58 38.0 4.07e-01 82.0% 97.1%
1124780 243.4.1.1 ↗ a+b two layers › Cystatin-like › DsbC/DsbG N-terminal domain-like › DsbC/DsbG N-terminal domain-like › DsbC_N 0.58 40.0 4.03e-01 84.0% 73.1%
5082482 4056.1.1.0 ↗ beta barrels › Barrel domain in upper collar protein › Barrel domain in upper collar protein › Barrel domain in upper collar protein 0.58 47.0 4.23e-01 96.0% 90.7%
4947252 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.57 37.0 3.85e-01 84.0% 71.1%
4024218 101.46.1.0 ↗ alpha arrays › HTH › Parafibromin N-terminal domain › Parafibromin N-terminal domain 0.57 44.0 3.65e-01 90.0% 70.0%
3838957 3439.1.1.0 ↗ a+b two layers › PafA/Dop C-terminal domain › PafA/Dop C-terminal domain › PafA/Dop C-terminal domain 0.57 38.0 3.52e-01 72.0% 74.3%
5078666 2004.1.1.293 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_15 0.57 44.0 2.81e-01 100.0% 17.6%
3365178 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.56 38.0 3.60e-01 72.0% 66.2%
4239781 3006.1.1.6 ↗ a+b two layers › Sm-Like archaeal protein Smap3, C-terminal domain › Sm-Like archaeal protein Smap3, C-terminal domain › Sm-Like archaeal protein Smap3, C-terminal domain › CPSF73-100_C 0.56 45.0 4.21e-01 100.0% 84.3%
3438045 386.1.1.20 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › zf-met 0.56 37.0 3.49e-01 70.0% 61.5%
3244218 3409.1.1.0 ↗ a+b duplicates or obligate multimers › Vacuolar protein sorting-associated protein 30 BARA domain › Vacuolar protein sorting-associated protein 30 BARA domain › Vacuolar protein sorting-associated protein 30 BARA domain 0.55 45.0 3.25e-01 94.0% 51.0%
5026901 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.55 39.0 3.78e-01 78.0% 85.0%
3819668 375.8.1.1 ↗ few secondary structure elements › Rubredoxin-like › Zinc-binding domain of translation initiation factor 2 beta › Zinc-binding domain of translation initiation factor 2 beta › eIF-5_eIF-2B 0.55 39.0 4.10e-01 88.0% 86.4%
4989457 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.55 39.0 3.99e-01 78.0% 86.0%
5031337 375.8.1.1 ↗ few secondary structure elements › Rubredoxin-like › Zinc-binding domain of translation initiation factor 2 beta › Zinc-binding domain of translation initiation factor 2 beta › eIF-5_eIF-2B 0.55 38.0 4.08e-01 84.0% 94.9%
3704121 375.1.1.19 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › RNA_POL_M_15KD 0.54 41.0 3.94e-01 86.0% 72.4%
3398222 136.1.1.3 ↗ alpha complex topology › Heme-dependent peroxidases › Heme-dependent peroxidases › Heme-dependent peroxidases › An_peroxidase 0.54 44.0 2.49e-01 96.0% 74.2%
5058682 2004.1.1.162 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Rad51 0.54 44.0 2.93e-01 100.0% 21.4%
4961481 4325.1.1.0 ↗ mixed a+b and a/b › YegP-like › YegP-like › YegP-like 0.54 36.0 3.27e-01 70.0% 58.6%
3672734 1.1.1.19 ↗ beta barrels › cradle loop barrel › RIFT-related › acid protease › Pol_BBD 0.53 37.0 2.93e-01 98.0% 33.0%
4618205 604.1.1.150 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › PF28954 0.53 43.0 3.29e-01 90.0% 86.7%
4932814 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.53 35.0 3.93e-01 74.0% 100.0%
3612107 375.8.1.1 ↗ few secondary structure elements › Rubredoxin-like › Zinc-binding domain of translation initiation factor 2 beta › Zinc-binding domain of translation initiation factor 2 beta › eIF-5_eIF-2B 0.53 40.0 3.81e-01 90.0% 68.3%
3499127 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.53 44.0 3.53e-01 100.0% 73.0%
3263503 331.4.1.9 ↗ a+b two layers › TBP-like › Kinase associated domain 1, KA1 › Kinase associated domain 1, KA1 › CPSF73-100_C 0.53 38.0 3.49e-01 82.0% 70.7%
4947834 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.53 44.0 3.59e-01 100.0% 75.2%
4948719 101.1.2.28 ↗ alpha arrays › HTH › HTH › winged helix domain › eIF-5_eIF-2B 0.53 39.0 3.12e-01 80.0% 83.0%
3511590 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.52 41.0 3.28e-01 88.0% 57.1%
3400449 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.52 45.0 3.11e-01 100.0% 98.9%
3781848 247.1.1.38 ↗ a+b four layers › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › CPSF73-100_C 0.52 42.0 3.89e-01 100.0% 85.7%
3926232 3409.1.1.0 ↗ a+b duplicates or obligate multimers › Vacuolar protein sorting-associated protein 30 BARA domain › Vacuolar protein sorting-associated protein 30 BARA domain › Vacuolar protein sorting-associated protein 30 BARA domain 0.52 43.0 3.20e-01 100.0% 54.7%
4600120 898.1.1.1 ↗ a+b two layers › a+b domain in Ribosomal protein L1 › a+b domain in Ribosomal protein L1 › a+b domain in Ribosomal protein L1 › Ribosomal_L1 0.51 39.0 3.10e-01 100.0% 36.8%
3176989 601.19.1.40 ↗ alpha bundles › Four-helical up-and-down bundle › Apolipoprotein › Apolipoprotein › PF28954 0.51 41.0 2.89e-01 90.0% 68.1%
3733350 2004.1.1.686 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › SNF2-rel_dom, DEAD, Helicase_C 0.51 41.0 2.35e-01 96.0% 40.3%
5044272 375.1.1.19 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › RNA_POL_M_15KD 0.51 38.0 3.84e-01 88.0% 86.0%
3493671 386.1.1.20 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › zf-met 0.50 40.0 2.65e-01 92.0% 44.3%
1921567 223.1.1.21 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains › HODM_asu-like 0.50 40.0 2.48e-01 94.0% 25.1%
3224950 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.50 36.0 2.93e-01 86.0% 38.1%
D2 high residues 68-154
PDB
Domain cluster: rep: OY757066.1__CAK1257060.1__K70PH128C1_LOCUS49__00049__D138-228
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF19905.5 best DUF6378 40.9 2.80e-10 92.0% 85.2%